Genomics – Meeting Programme

Who & What
We are staff and students that sit together to discuss recent literature on genomics. We are interested in a broad range of topics including but not limited to regulatory genomics, gene expression, DNA methylation, mutational evolution, GWAS, single cell sequencing, and environmental and behavioural genetics.
The JC is organised by Amy Roberts and Ricardo Costeira

When & Where

We meet up 1pm on Tuesdays at the Department of Twin Research & Genetic Epidemiology, St Thomas’ Hospital Campus, 4th Floor South Wing Block D (Directions here). A Zoom link is also provided for those needing to join remotely. Details for each meeting are provided via our mailing list.

Register to our mailing list here.

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Upcoming meetings:

Date	Presenter	Paper
10/10/2023, 1pm	Amy Roberts	Clonal hematopoiesis is associated with protection from Alzheimer’s disease
24/10/2023, 1pm	Ricardo Costeira	TBC
07/11/2023, 1pm	Sergio Villicana Munoz	People with more extreme attitudes towards science have self-confidence in their understanding of science, even if this is not justified
21/11/2023, 1pm	Daniel Kirk	TBC
05/12/2023, 1pm	Ramy Saad	TBC

Past meetings:

Date	Presenter	Paper
05/07/2023, 1pm	Sergio Villicana Munoz	Polygenic scoring accuracy varies across the genetic ancestry continuum
21/06/2023, 1pm	Xinyu Yan	Exploiting the mediating role of the metabolome to unravel transcript-to-phenotype associations.
07/06/2023, 1pm	Amy Roberts	Discussion on “Positive Research Culture”
24/05/2023, 1pm	Dongmeng Wang	Longitudinal phenotypic aging metrics in the Baltimore Longitudinal Study of Aging
10/05/2023, 1pm	Max Tomlinson	Genetic predictors of lifelong medication-use patterns in cardiometabolic diseases
26/04/2023, 1pm	Ricardo Costeira	Limited role of generation time changes in driving the evolution of the mutation spectrum in humans
12/04/2023, 1pm	Amy Roberts	Integrated analysis of multimodal single-cell data
22/03/2023, 1pm	Chris Shore	Function and Constraint in Enhancer Sequences with Multiple Evolutionary Origins
08/03/2023, 1pm	Sergio Villicana Munoz	Human Capital Mediates Natural Selection in Contemporary Humans
22/06/2022, 1pm	Fran Conti-Ramsden	Genetic predisposition to hypertension is associated with preeclampsia in European and Central Asian women
08/06/2022, 1pm	Zakaria Jarrar	Promoting the genomic revolution in Africa through the Nigerian 100K Genome Project
25/05/2022, 1pm	Yujing (Maggie) Xia	DNA methylation signature of chronic low-grade inflammation and its role in cardio-respiratory diseases
11/05/2022, 1pm	Xinyu Yan	Genome-wide analysis provides genetic evidence that ACE2 influences COVID-19 risk and yields risk scores associated with severe disease
27/04/2022, 1pm	Niccolo Rossi	Single-cell eQTL mapping identifies cell type–specific genetic control of autoimmune disease
23/03/2022, 1pm	Christopher Shore	Identifying molecular targets for reverse aging using integrated network analysis of transcriptomic and epigenomic changes during aging
09/03/2022, 1pm	Ricardo Costeira	Longitudinal DNA methylation dynamics as a practical indicator in clinical epigenetics
23/02/2022, 1pm	Xiaofan Jiang	Epigenetic Age Acceleration Is Not Associated with Age-Related Macular Degeneration
09/02/2022, 1pm	Maxim Freydin	A global overview of genetically interpretable multimorbidities among common diseases in the UK Biobank
26/01/2022, 1pm	Dongmeng Wang	Subcutaneous adipose tissue splice quantitative trait loci reveal differences in isoform usage associated with cardiometabolic traits
12/01/2022, 1pm	Sergio Villicana Munoz & Xiaopu Zhang	Paper1 : RETRACTED ARTICLE: Detection and replication of epistasis influencing transcription in humans Paper2 : Phantom epistasis between unlinked loci
08/12/2021, 1pm	Zihe Xu	Rare variant contribution to human disease in 281,104 UK Biobank exomes
24/11/2021, 1pm	Yasrab Raza	Functional dynamic genetic effects on gene regulation are specific to particular cell types and environmental conditions
10/11/2021, 1pm	Colette Christiansen	Body Mass Index and Birth Weight Improve Polygenic Risk Score for Type 2 Diabetes
27/10/2021, 1pm	Amy Roberts	Distinction of lymphoid and myeloid clonal hematopoiesis
13/10/2021, 1pm	Max Tomlinson	Predicting the probability of death using proteomics
29/09/2021, 1pm	Paraskevi Christofidou	Uncovering genetic mechanisms of hypertension through multi-omic analysis of the kidney
15/09/2021, 12:30pm	Roger Compte	A combined analysis of genetically correlated traits identifies 187 loci and a role for neurogenesis and myelination in intelligence
23/06/2021 Wed, 12:30pm	Mark Simcoe	Tuberculosis Exposure With Risk of Behçet Disease Among Patients With Uveitis
09/06/2021 Wed, 12:30pm	Zakariya Jarrar	A genome-wide association study identifies key modulators of complement factor H binding to malondialdehyde-epitopes
26/05/2021 Wed, 12:30pm	Christopher Shore	The NASA Twins Study: A multidimensional analysis of a year-long human spaceflight
12/05/2021 Wed, 12:30pm	Niccolo Rossi	Maternal effect killing by a supergene controlling ant social organization
28/04/2021 Wed, 12:30pm	Roger Compte	Machine learning suggests polygenic risk for cognitive dysfunction in amyotrophic lateral sclerosis
14/04/2021 Wed, 12:30pm	Dongmeng Wang	Genetic control of RNA splicing and its distinctive role in complex trait variation
24/03/2021 Wed, 12:30pm	Nirujah Sarvanantharajah	Phenome-wide functional dissection of pleiotropic effects highlights key molecular pathways for human complex traits
10/03/2021 Wed, 12:30pm	Max Tomlinson	GWAS of three molecular traits highlights core genes and pathways alongside a highly polygenic background
24/02/2021 Wed, 12:30pm	Karina Patasova	Differences between germline genomes of monozygotic twins
10/02/2021 Wed, 12:30pm	Zihe Xu	Investigating the genetic architecture of noncognitive skills using GWAS-by-subtraction
27/01/2021 Wed, 12:30pm	Yasrab Raza	Genetic mechanisms of critical illness in Covid-19
13/01/2021 Wed, 12:30pm	Xiaofan Jiang	Genome-wide association analyses of chronotype in 697,828 individuals provides insights into circadian rhythms
09/12/2020 Wed, 12:30pm	Shafiqur Rahman	Validity of polygenic risk scores: are we measuring what we think we are?
25/11/2020 Wed, 12:30pm	Sergio Villicana Munoz	Fine-scale population structure in the UK Biobank: implications for genome-wide association studies
11/11/2020 Wed, 12:30pm	Ricardo Costeira	A decade of epigenetic change in aging twins: Genetic and environmental contributions to longitudinal DNA methylation
28/10/2020 Wed, 12:30pm	Paraskevi Christofidou	Associations of autozygosity with a broad range of human phenotypes
14/10/2020 Wed, 12:30pm	Colette Christiansen	Allele-Specific Network Reveals Combinatorial Interaction That Transcends Small Effects in Psoriasis GWAS
30/09/2020 Wed, 12:30pm	Amy Roberts	The impact of sex on gene expression across human tissues
16/09/2020 Wed, 12:30pm	Maxim Freydin	PWAS: proteome-wide association study—linking genes and phenotypes by functional variation in proteins
12/08/2020 Wed, 12:30pm	Merideth Freiheit	Computational Prospecting the Great Viral Unknown + Talk “Exploring Phages in Gut Metagenomic Data from Twins Discordant for Antimicrobial Resistance Potential”
01/07/2020 Wed, 12:30pm	Philippa Wells	Association of Genetic Risk for Rheumatoid Arthritis With Cognitive and Psychiatric Phenotypes Across Childhood and Adolescence
17/06/2020 Wed, 12:30pm	Niccolò Rossi	Increasing trend of scientists to switch between topics
03/06/2020 Wed, 12:30pm	Karina Patasova	Pan-cancer analysis of whole genomes
20/05/2020 Wed, 12:30pm	Olatz Mompeo Masachs	Genome-wide association study of dietary intake in the UK biobank study and its associations with schizophrenia and other traits
06/05/2020 Wed, 12:30pm	Mark Simcoe	Estimating heritability and its enrichment in tissue-specific gene sets in admixed populations
22/04/2020 Wed, 12:30pm	Sergio Villicana Munoz	A global overview of pleiotropy and genetic architecture in complex traits
25/03/2020 Wed, 12.30pm	Wing-Kin Chan	Candidate Cancer Driver Mutations in Distal Regulatory Elements and Long-Range Chromatin Interaction Networks
11/03/2020 Wed, 12.30pm	Shafiqur Rahman	Adaptive archaic introgression of copy number variants and the discovery of previously unknown human genes
26/02/2020 Wed, 12.30pm	Helen King	Diverse reprogramming codes for neuronal identity
12/02/2020 Wed, 12.30pm	Sara Reci	DNA methylation profiles are associated with complex regional pain syndrome after traumatic injury
29/01/2020 Wed, 12.30pm	Simon Couvreur	Is population structure in the genetic biobank era irrelevant, a challenge, or an opportunity?
15/01/2020 Wed, 12.30pm	Ricardo Costeira	Epigenome-wide association study of DNA methylation and microRNA expression highlights novel pathways for human complex traits
11/12/2019 Wed, 12.30pm	Olatz Mompeo Masachs	Comparison of adopted and non-adopted individuals reveals gene-environment interplay for education in the UK Biobank
13/11/2019 Wed, 12.30pm	Amy Roberts	Genetic correlates of social stratification in Great Britain
16/10/2019 Wed, 12.30pm	Maxim Freydin	The multiplex network of human diseases
02/10/2019 Wed, 12.30pm	Mark Simcoe	Recovery of trait heritability from whole genome sequence data
18/09/2019 Wed, 12.30pm	Paraskevi Christofidou	Quantitative analysis of population-scale family trees with millions of relatives
26/06/2019 Wed, 12.30pm	Alessia Visconti	Scale-free networks are rare
12/06/2019 Wed, 12.30pm	Giulia Beatrice Piaggeschi	Cell Specific eQTL Analysis without Sorting Cells
29/05/2019 Wed, 12.30pm	Antonino Zito	Single-cell RNA sequencing identifies cell-type-specific cis-eQTLs and co-expression QTLs
01/05/2019 Wed, 12.30pm	Maxim Freydin	Learning one’s genetic risk changes physiology independent of actual genetic risk
05/04/2019 Fri, 11am	Adewale Adebayo	Identification of 12 genetic loci associated with human healthspan
22/03/2019 Fri, 11am	Amy Roberts	Whole-genome sequencing identifies complex contributions to genetic risk by variants in genes causing monogenic systemic lupus erythematosus
08/03/2019 Fri, 11am	Karina Patasova	A primer on deep learning in genomics
22/02/2019 Fri, 11am	Shafiqur Rahman	Assessing the Pathogenicity, Penetrance, and Expressivity of Putative Disease-Causing Variants in a Population Setting
08/02/2019 Fri, 12pm	Mark Simcoe	Estimating SNP-Based Heritability and Genetic Correlation in Case-Control Studies Directly and with Summary Statistics
25/01/2019 Fri, 12pm	Maxim Freydin	Large-scale investigation of the reasons why potentially important genes are ignored.
11/01/2019 Fri, 12pm	Marcel van de Streek	Modified penetrance of coding variants by cis-regulatory variation contributes to disease risk.
07/12/2018 Fri, 12pm	Philippa Wells	DADA2: High-resolution sample inference from Illumina amplicon data
09/11/2018 Fri, 12pm	Juan Castillo Fernandez	Module Analysis Captures Pancancer Genetically and Epigenetically Deregulated Cancer Driver Genes for Smoking and Antiviral Response.
12/10/2018 Fri, 12pm	Olatz Mompeo Masachs	Height, body mass index, and socioeconomic status: mendelian randomisation study in UK Biobank.
28/09/2018 Fri, 12pm	Marianna Sanna	Genomic history of the Sardinian population.
06/07/2018 Fri, 12pm	Antonino Zito	Intra-tumour diversification in colorectal cancer at the single-cell level.
22/06/2018 Fri, 12pm	Alessia Visconti	Functional mapping and annotation of genetic associations with FUMA.
25/05/2018 Fri, 12pm	Marcel van de Streek	Characterizing the genetic basis of transcriptome diversity through RNA-sequencing of 922 individuals.
11/05/2018 Fri, 12pm	Niccolo’ Rossi	G = E: What GWAS Can Tell Us about the Environment.
27/04/2018 Fri, 12pm	Juan Castillo Fernandez	DNA methylation-based biomarkers and the epigenetic clock theory of ageing.
09/03/2018 Fri, 12pm	Alex Couto Alves	Recent natural selection causes adaptive evolution of an avian polygenic trait.
19/01/2018 Fri, 12pm	Antonino Zito	Landscape of X chromosome inactivation across human tissues.
01/12/2017 Fri, 12pm	Marcel van de Streek	Genetic effects on gene expression across human tissues.
06/11/2017 Fri, 12pm	Juan Castillo Fernandez	Caloric restriction delays age-related methylation drift.
06/10/2017 Fri, 12pm	Alessia Visconti	An atlas of genetic associations in UK Biobank.
29/09/2017 Fri, 12pm	Niccolo’ Rossi	An Integration of summary data from GWAS and eQTL studies predicts complex trait gene targets.
30/06/2017 Fri, 12pm	Alex Couto Alves	An Expanded View of Complex Traits: From Polygenic to Omnigenic.
26/05/2017 Fri, 12pm	Mariana Sanna	Analysis of protein-coding genetic variation in 60,706 humans.
12/05/2017 Fri, 12pm	Niccolo’ Rossi	A semi-synthetic organism with an expanded genetic alphabet.
05/05/2017 Fri, 12pm	Imogen Potter	Diet-Microbiota Interactions Mediate Global Epigenetic Programming in Multiple Host Tissues.
28/04/2017 Fri, 12pm	Maxim Freydin	Selection against variants in the genome associated with educational attainment.
17/03/2017 Fri, 12pm	Mariana Sanna	Epigenetic and genetic dissections of UV-induced global gene dysregulation in skin cells through multi-omics analyses.
10/03/2017 Fri, 12pm	Niccolo’ Rossi	Genome evolution predicts genetic interactions in protein complexes and reveals cancer drug targets.
03/02/2017 Fri, 12pm	Mariana Sanna	Derived immune and ancestral pigmentation alleles in a 7,000-year-old Mesolithic European.
20/01/2017 Fri, 12pm	Mariana Sanna	Integrated computational approach to the analysis of RNA-seq data reveals new transcriptional regulators of psoriasis.
13/01/2017 Fri, 12pm	Niccolo’ Rossi	Epistasis and natural selection shape the mutational architecture of complex traits.
16/12/2016 Fri, 12pm	Juan Castillo Fernandez	Genetic Drivers of Epigenetic and Transcriptional Variation in Human Immune Cells.
09/12/2016 Fri, 12pm	Yuko Kurushima	Correlation of Smoking-Associated DNA Methylation Changes in Buccal Cells With DNA Methylation Changes in Epithelial Cancer.
25/11/2016 Fri, 12pm	Serena Verdi	Epigenetic modulation of chronic anxiety and pain by histone deacetylation.
11/11/2016 Fri, 12pm	Alex Couto Alves	A new view of transcriptome complexity and regulation through the lens of local splicing variations.
14/10/2016 Fri, 12pm	Helena Wells	Revisiting telegony: offspring inherit an acquired characteristic of their mother’s previous mate.
26/08/2016 Fri, 2pm	Alex Couto Alves	Sex speeds adaptation by altering the dynamics of molecular evolution.
19/08/2016 Fri, 2pm	Craig Glastonbury	Tempo and mode of genome evolution in a 50,000-generation experiment.
29/07/2016 Fri, 1pm	Antonino Zito	Main paper: Unique features of long non-coding RNA biogenesis and function. Supplementary paper: The Landscape of long noncoding RNA classification.
07/07/2016 Thu, 1pm	Alex Couto Alves	Genetic mapping uncovers cis-regulatory landscape of RNA editing.
24/06/2016 Fri, 1pm	Clémence Pinel	Epistemic modesty, ostentatiousness and the uncertainties of epigenetics: on the knowledge machinery of (social) science.
10/06/2016 Fri, 1pm	Alex Couto Alves	The multiple testing burden in sequencing-based disease studies of global populations.
27/05/2016 Fri, 2pm	Craig Glastonbury	Biology of genomes (videos).
26/05/2016 Thu, 2pm	Craig Glastonbury	Biology of genomes (videos).
19/05/2016 Thu, 1pm	Craig Glastonbury	Biology of genomes (videos).
28/04/2016 Thu, 1pm	Alex Couto Alves	Comparative evaluation of isoform-level gene expression estimation algorithms for RNA-seq and exon-array platforms.
24/03/2016 Thu, 1pm	Tiphaine Martin	Modelling local gene networks increases power to detect trans-acting genetic effects on gene expression.
17/03/2016 Thu, 1pm	Alex Couto Alves	Multiple Testing Procedures and Applications to Genomics.Resampling-Based Multiple Hypothesis Testing with Applications to Genomics: New Developments in the R/Bioconductor Package multtest.
25/02/2016 Thu, 12pm	Elena Carnero Montoro	Population-specificity of human DNA methylation.
19/02/2016 Fri, 3.30pm	Tiphaine Martin	Ribosome profiling: new views of translation, from single codons to genome scale.
05/02/2016	Craig Glastonbury	Fine-mapping cellular QTLs with RASQUAL and ATAC-seq.
29/01/2016	Alex Couto Alves	Alternative Splicing QTLs in European and African Populations
22/01/2016	Antonino Zito	Abundant contribution of short tandem repeats to gene expression variation in humans.
15/01/2016	Abhishek Nag	The UK10K project identifies rare variants in health and disease.
04/12/2015	Alexander Zlobin	Identification of a large set of rare complete human knockouts (in Icelanders).
27/11/2015	Craig Glastonbury	Predicting quantitative traits from genome and phenome with near perfect accuracy.
20/11/2015	Tiphaine Martin	Large multiallelic copy number variations in humans.
13/11/2015	Craig Glastonbury	Buffet-Style Expression Factor-Adjusted Discovery Increases the Yield of Robust Expression Quantitative Trait Loci.
30/10/2015	Alex Couto Alves	An atlas of genetic correlations across human diseases and traits.
23/10/2015	Elena Carnero Montoro	The fine-scale genetic structure of the British population.
16/10/2015	Alessia Visconty & Maxim Freydin	LD Score regression distinguishes confounding from polygenicity in genome-wide association studies. Partitioning heritability by functional annotation using genome-wide association summary statistics.
09/10/2015	Maxim Freydin	Partitioning heritability by functional annotation using genome-wide association summary statistics.
02/10/2015	Alex Couto Alves	Normalization of RNA-seq data using factor analysis of control genes or samples.
18/09/2015	Alex Couto Alves	RNA-Seq gene expression estimation with read mapping uncertainty.
11/09/2015	Alex Couto Alves	Mapping and quantifying mammalian transcriptomes by RNA-Seq.
04/09/2015	Antonino Zito	Evaluation of the Infinium Methylation 450K technology.
28/08/2015	Craig Glastonbury	Systematic evaluation of spliced alignment programs for RNA-seq data.
21/08/2015	Tiphaine Martin & Alex Couto Alves	Genetic and epigenetic fine mapping of causal autoimmune disease variants.
14/08/2015	Craig Glastonbury	Integrative analysis of 111 reference human epigenomes.
07/08/2015	Elena Carnero Montoro & Maria Needhamsen	ChromHMM: automating chromatin-state discovery and characterization. Unsupervised pattern discovery in human chromatin structure through genomic segmentation.
31/07/2015	Alex Couto Alves	Landscape of transcription in human cells (revisited).
24/07/2015	Alex Couto Alves	An integrated encyclopedia of DNA elements in the human genome (revisited).
17/07/2015	Alex Couto Alves	Intersecting transcription networks constrain gene regulatory evolution
10/07/2015	Craig Glastonbury	Cell specific eQTL analysis without sorting cells
03/07/2015	Tiphane Martin	Widespread seasonal gene expression reveals annual differences in human immunity and physiology
26/06/2015	Maxim Freydin	Special session on the Belyaev experiment (Destabilizing selection as a factor in domestication)
19/06/2015	Alex Couto Alves	The Genotype-Tissue Expression (GTEx) pilot analysis: multitissue gene regulation in humans
12/06/2015	Elena Carnero Montoro	Additive, Epistatic, and Environmental Effects Through the Lens of Expression Variability QTL in a Twin Cohort
5/06/2015	Dunja Vucenovic	The role of chromosome domains in shaping the functional genome
15/05/2015	Dunja Vucenovic	Single-cell Hi-C reveals cell-to-cell variability in chromosome structure
17/04/2015	Alex Couto Alves	Gene-gene and gene-environment interactions detected by transcriptome sequence analysis in twins
20/03/2015	Dunja Vucenovic	Chimeras taking shape: Potential functions of proteins encoded by chimeric RNA transcripts